Typing tool
|
Complete norovirus genomes
MW661277 | GII.2 | ||
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GII.P16 |
ORF1: 4..5103 ORF2: 5084..6712 ORF3: 6712..7491LOCUS MW661277 7600 bp RNA linear VRL 28-SEP-2021 DEFINITION Norovirus GII isolate BMH19-125 nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds. ACCESSION MW661277 VERSION MW661277.1 DBLINK BioProject: PRJNA396739 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7600) AUTHORS Nasheri,N., Flint,A., Reaume,S., Harlow,J., Hoover,E. and Weedmark,K. TITLE Genomic Analysis of Human Noroviruses Using Hybrid Illumina-Nanopore Data JOURNAL Unpublished REFERENCE 2 (bases 1 to 7600) AUTHORS Nasheri,N., Flint,A., Reaume,S., Harlow,J., Hoover,E. and Weedmark,K. TITLE Direct Submission JOURNAL Submitted (23-FEB-2021) Bureau of Microbial Hazards, Health Canada, 251 SIR FREDERICK BANTING, Ottawa ON, Canada COMMENT ##Assembly-Data-START## Assembly Method :: Medaka v. v1.1.3; Pilon v. v1.23 Sequencing Technology :: Illumina; Nanopore ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7600 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="BMH19-125" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Canada: British Columbia" /collection_date="2019" /note="Viral RNA extracted from fecal samples; genotype: GII.2_GII.P16" gene 4..5103 /gene="ORF1" CDS 4..5103 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QSD58450.1" /translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP KQPAPGDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ PDVVNTAFSVPPLSLRENREAKEPLTGAVLEMWDGEIYHYGLYVEKGLVLGVHKPPAA ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI GKIKPLNILNILATCDWTFAGIVESLILFAELFGVFWTPPDVSAMIAPLLGDYELQGP EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK TMEELKQAIRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD CGCPYIYKRGNDYIAIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPYHVRKNEFW NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGRIKKRLLWGSDL STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK EYGLKPTRPDKTEGPLIISGDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" mat_peptide 4..999 /gene="ORF1" /product="p48" mat_peptide 1000..2097 /gene="ORF1" /product="NTPase" mat_peptide 2098..2628 /gene="ORF1" /product="p22" mat_peptide 2629..3027 /gene="ORF1" /product="VPg" mat_peptide 3028..3570 /gene="ORF1" /product="Pro" mat_peptide 3571..5100 /gene="ORF1" /product="RdRp" gene 5084..6712 /gene="ORF2" CDS 5084..6712 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QSD58451.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6712..7491 /gene="ORF3" CDS 6712..7491 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QSD58452.1" /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG TRYWAPNSMRTTSYSGKFTSTTPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA" ORIGIN 1 tgaatgaaga tggcgtctaa cgacgcttcc gctgccgttg cttgcaacaa caacaacgac 61 aaagaaaaat cttcaggtga aggcttattc acaaatatgt cttccacctt aaagaaagcc 121 ctcggggcta ggcccaaaca gcctgccccg ggagacaaac cacaaaagcc cccaagacca 181 ccaactcccg agttggtcaa gaggataccc cctcctccac ctaacggcga agaagaagag 241 gaaccagtca ttaggtatga ggttaagagt gggatctctg gcctgcccga gctcacaaca 301 gtcccccaac cggacgtggt caacacagca ttcagtgttc caccactgag cttgagagaa 361 aacagggagg ccaaggagcc gctaacaggg gcagtattag agatgtggga tggagagata 421 taccactatg gcctgtacgt ggagaaaggc ttagtgttgg gtgtgcacaa accacctgca 481 gccataagca tggcaagagt ggagctgacg ccgttgtcat tgtactggcg tgtggtgtac 541 actccccaat acctcatctc ccctgaaacc ctcaggaggc tcaacggaga ggcattccct 601 tacaccgcct ttgacaacaa ctgctatgcc ttttgctgct gggtattaga cctcaatgac 661 tcatggctta gcaggaggat ggtacaaaga acaacgggct tcttcagacc ttaccaagag 721 tggaacagaa aacccctgcc taccatggat gactccaaaa ttaagaaggt agcaaatata 781 tttctatgtt cattgtccac attattcacc agacccataa aagacctcat aggaaaaatt 841 aaaccattga acatattaaa tatcctggca acgtgtgact ggacttttgc cggaatagtg 901 gagtctctga tattatttgc tgaactcttc ggagttttct ggacaccccc agatgtgtct 961 gctatgatcg ctcccttact cggggactac gagttacaag ggccagaaga cctcgccgtt 1021 gaactcgtac ctgtggtaat gggggggatt ggtttggtgt tgggattcac caaagagaaa 1081 attggcaaaa tgttgtcctc agcagcatca acactcaggg cttgcaaaga tcttggtgcc 1141 tatggcttag agatactcaa attggtcatg aaatggttct tcccaaagaa agaggaggcc 1201 aatgagctag ctatggtgag agccatagag gatgctgtac tagaccttga ggcaatagaa 1261 aataaccaca tgacaaccct gttgaaagac aaagacagct tagcaacata catgaaaaca 1321 ctggacatgg aggaggagaa agccaggagg ttgtccacaa aatctgcatc ccctgacata 1381 gttgggacaa tcaacgccct gctggctcga atagcagcgg ccaggtcatt agtccacagg 1441 gccaaggaag agctatctag caggataagg ccagtagttg ttatgatatc tggcaaacca 1501 ggaataggca aaactcatct ggccagggag gtggcaagaa aggtggcatc cactctcaca 1561 ggggatcaaa gagtcggact cataccacga aacggtgtgg accattggga tgcatacaaa 1621 ggtgagagag tcgtgctgtg ggacgactat ggcatgagta accctattca tgatgctctt 1681 cgcatacaag aattggctga tacgtgtccc cttaccttaa attgtgacag aattgaaaat 1741 aagggaaaag tttttgacag tgaagtcata ataattacaa caaacctcgc caatccagcc 1801 ccacttgatt atgtcaactt tgaggcctgt tccaggagaa ttgatttcct ggtgtacgct 1861 gaggcaccag aagtagaaaa ggcaaaacgg gactttcctg gtcagccaga tatgtggaag 1921 gacgccttca agccggactt ttcacacatc aagctacagc ttgcacccca gggcggcttt 1981 gacaagaatg gcaacacccc acatgggaaa ggagtgatga agaccctcac taccggttct 2041 ctgattgccc gtgcatcagg cctactgcat gagaggatgg atgaatttga actccaaggt 2101 cccacaatca ccaccttcaa tttcgaccgg aacagaatca cggcattcag acaattggct 2161 gcagaaaaca agtatggatt ggtggatacc atgaaagttg gcaatcaatt aaaaggagtg 2221 aaaaccatgg aagaactcaa acaagcaatc aggaatgtga ccatcaagag gtgccagatc 2281 atctacggtg gttccacgta tgaccttgaa tctgatggca agggcaaagt tttggtggaa 2341 aaggtcaaga acacctctgt acagaccaat aacgagttgg ctggggccct gcaccatctc 2401 aaacatgccc gaatcaggta ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcata 2461 caaattgccg gcgctgcgtt tgtcaccacg cgcattgcac gccgcatgaa catacaagaa 2521 ctctggtcga agccacaatt agatcaaaat gaatcagaga ctaaggaaga ggcccccaag 2581 tcagaagatg acgagttcat catatcttct aaggacatca aggaggaagg aaagaagggc 2641 aaaaacaaaa ctggccgtgg caagaaacac actgcattct ccagcaaggg cttgagcgat 2701 gaggagtatg acgagtacaa gaggataaga gaagagagaa atgggaagta ctctatagag 2761 gagtatcttc aagacagaga caggtactat gaggagctcg ccattgccaa ggccacggaa 2821 gaagacttct gtgaagagga ggagatcaaa atccgtcaga gaattttccg tcctaccagg 2881 aaacaaagaa aggaagagag ggccacatta gggctagtaa caggttcaga aatcagaaaa 2941 agaaaccctg atgacttcaa acccaaaggg aagctgtggg ccgatgacaa caggagtgtt 3001 gactacaatg agaaactgga ctttgaggcc cccccaagca tatggtccag gattgtgagc 3061 tttggttctg gctggggctt ctgggtgtca ccaagccttt ttataacatc aactcatgta 3121 atccccgcag gcataacaga agcatttgga gtccccatca aacaaattca gatccacaaa 3181 tcaggcgaat tttgccgatt cagattccca aaaccaatta gaccagatgt gacaggaatg 3241 atcttggaag aaggtgcgcc tgagggcacc gtggcaactg tgctcatcaa acgccccacc 3301 ggagagctca tgcctcttgc agccagaatg ggaacacacg caaccatgaa aattcaaggc 3361 cgcatggttg gcggacagat gggtatgttg ctcactggat caaacgctaa aggaatggac 3421 ttgggaacaa ctcctggtga ctgtggctgt ccttacatct ataaaagggg caatgactat 3481 atagccattg gggtgcacac tgcagcagcc cgtggtggaa acactgtcat ctgtgccaca 3541 cagggaagtg agggtgaggc aactcttgag ggtggagatg acaaaggaac atactgtggg 3601 gcacccattc taggccctgg gggtgcacca aaattgagca ccaaaaccaa attttggagg 3661 tcatcgaaca cgccccttcc accagggaca tatgagcctg cctacctcgg tggccgtgat 3721 ccgcgtgtta agggtgggcc ttccctgcag caggtaatga gagaccagtt gaagcctttc 3781 actgaaccca ggggcaaacc tccaagacca agtgtattgg aagcagccaa acaaaccatc 3841 atcaatgtcc tcgaacaaac cctggaccct ccacaaaaat ggacatacgc acaggcgtgt 3901 gcctcacttg acaaaaccac atccagcggg cacccctatc acgtccgaaa gaatgaattc 3961 tggaatggtg agaccttcac tggtaaactg gcagaccaag catcaaaagc aaatctaatg 4021 tttgaggaag ggaaacacat gacgccagtg tacacagcag cactcaagga cgagctagtc 4081 aagactgaga aaatctatgg aaggatcaag aagagactgc tctggggctc tgacttgtcc 4141 accatgatcc ggtgcgctag gtcatttggt gggcttatgg acgagatgaa ggcacactgc 4201 atatcactcc cagtccgagt tggcatgaat atgaatgaag atggcccaat aatatttgag 4261 aaacattcca gatacaaata tcactatgat gcagactact ctcgttggga ttcaacacaa 4321 cagagggcag tactagcagc agccttggaa atcatggtca gattctctgc agaaccacaa 4381 ttggcacaaa tagtcgctga ggatctgctg gcccctagtg tagtagatgt aggagacttt 4441 aaaattacaa taaatgaagg gctcccttct ggtgtgccat gcacttctca atggaactcc 4501 atcgcacact ggctgctaac tctctgtgcc ttgtctgaag tcaccaaact gtcccctgac 4561 attatacagg caaattccat gttctcattt tacggtgatg acgagattgt cagcaccgac 4621 ataaaattgg accctgaaca gttaaccgcc aaattgaagg agtacggcct gaaaccaacc 4681 cgcccagaca aaaccgaggg acccctgatt atcagtgggg atttgaacgg tctcactttc 4741 ctccgaagga cggtgactcg tgacccagct ggctggtttg gaaaactgga tcaaagctca 4801 attttgaggc agatgtactg gactagagga ccaaatcatg aagaccccaa tgagacaatg 4861 ataccccatt ctcaaagacc catacagctc atggcactgc ttggtgaagc ctctcttcac 4921 ggaccctctt tctacagtaa aatcagtaaa ttggtcataa ctgaactcaa agaaggtggg 4981 atggactttt acgtgccaag gcaggaaccc atgttcaggt ggatgaggtt ttctgacttg 5041 agcacgtggg agggcgatcg caatctggct cccaattttg tgaatgaaga tggcgtcgaa 5101 tgacgccgct ccatctactg atggtgcagc cggcctcgtg ccagaaagta acaatgaggt 5161 catggccctt gaacccgtgg ctggtgccgc cttggcagcc ccggtcaccg gtcaaacaaa 5221 tattatagac ccttggatta gagcaaattt tgtccaggcc cccaatggtg aatttacagt 5281 ctctccccga aatgcccctg gtgaagtgct actgaatcta gagttgggtc cagaattaaa 5341 tccttatctg gcacatttag caagaatgta caatgggtat gccggtggga tggaggtgca 5401 ggtcatgttg gctgggaacg cgttcacagc cggcaagttg gtcttcgccg ccgtgccacc 5461 ccacttcccg gttgaaaacc ttagcccaca gcaaatcacc atgttccctc atgtgatcat 5521 agatgtgaga accttggaac ctgttttatt accactccct gatgttagga ataacttctt 5581 ccattataac cagaaagatg atcccaagat gagaattgtg gctatgcttt atacccccct 5641 caggtctaat ggttcaggtg atgatgtgtt tacagtctcc tgtagagtgt tgactagacc 5701 ttcccctgac tttgacttca catacctggt gccaccaaca gtggagtcta aaacaaagcc 5761 attcaccctc ccaatcctca cacttgggga actttccaat tctaggttcc cagtgtccat 5821 agaccagatg tacaccagcc ctaatgaaat tatatcagtg cagtgtcaaa atggtaggtg 5881 cacactggac ggggagctcc aagggacaac acaactccaa gtcagtggca tttgtgcttt 5941 caaaggtgaa gtaaccgccc acttgcatga caatgatcac ctatataatg tcaccatcac 6001 aaacttgaat gggtcccctt ttgatccctc cgaggatatc cctgcccctc tgggtgtgcc 6061 tgacttccag ggaagggttt ttggtatcat ctcccaaaga gataaacaca atagtcctgg 6121 gcataatgaa ccagcaaaca ggggacacga cgctgtggtc cccacttaca cagcacagta 6181 tactccaaaa cttggacaaa ttcaaattgg cacatggcaa actgacgacc ttacagtcaa 6241 ccaaccagtc aaattcaccc cagttggact caatgatact gaacacttta accaatgggt 6301 ggtccctagg tatgctggtg ccctaaatct caatacaaac cttgcccctt ctgttgctcc 6361 agtatttcca ggagagcgct tgctcttctt cagatcatac attcccctca agggcggtta 6421 tggaaaccca gccattgatt gcctactacc acaagagtgg gtgcaacact tctatcagga 6481 agcagcccct tcaatgagtg aggtggccct cgtcagatac atcaacccgg acactggtcg 6541 ggcactgttt gaggccaagc tccacagagc tggtttcatg acagtctcga gcaacaccag 6601 tgccccggtg gttgtgcctg ccaacgggta cttcagattt gattcttggg tgaaccaatt 6661 ttattctctc gcccccatgg gaactgggaa tgggcgtaga agggttcaat aatggctgga 6721 gcttttgtag ctggtcttgc aggggacgtg ctcagcaatg ggcttagttc attaatcaat 6781 gcaggtgcta atgcaataaa tcagagggca gaatttgatt ttaatcagaa attgcagcaa 6841 aattctttta atcatgataa ggagatgttg caggctcaga ttcaggcaac taagcagctg 6901 caggcagaca tgatggctat aaaacaaggg gtcttgaccg ctggcggctt ttcccctgct 6961 gatgcagcca gaggtgccgt gaacgcgccc atgacacagg cgctggattg gaatggcaca 7021 aggtattggg caccaaactc catgaggacc acatcttatt ctggaaaatt tacatcaacc 7081 accccagtga ggcaggctga cttccagcac acccaaagcc ggccttcgag tggctcctct 7141 gtgtcttcct ttgccactca gtcttcaagg ccaactctga ccacaaccac tggttcctca 7201 catggcacag cctcatcaaa ttcaactcgc agcacaagcc tctcccaatc aacggtctcc 7261 agagctacat ctaggactgg tgagtgggtt agagatcaaa atagaaattt ggaaccctac 7321 atgcatggtg ccttacagac agcctttgtc accccacctt ccagtagggc atctgacggg 7381 acagtctcaa ccgtccctaa aggtgttttg gactcctgga cacctgcgtt caacacccgc 7441 aggcagccgc tttttgcaca cctccgtaag aggggggagt cacaagctta gtgaaaaggt 7501 gaaaatctat ttaggatgaa ttgattttac tttttaaaaa aaaaaaaaaa aaaaaaaaaa 7561 aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa //